Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 320 of 325
Found at i:100883165 original size:11 final size:10
Alignment explanation
Indices: 100883130--100883183 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 10
100883120 TTTTTATCTA
100883130 TTTATTATTTT
1 TTTATT-TTTT
100883141 TTTATTATTTT
1 TTTATT-TTTT
100883152 TTTATTTTTCT
1 TTTATTTTT-T
100883163 TTTGATTTTTAT
1 TTT-ATTTTT-T
100883175 TTCTATTTT
1 TT-TATTTT
100883184 ATTATTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
10 3 0.08
11 21 0.54
12 14 0.36
13 1 0.03
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:100883172 original size:7 final size:6
Alignment explanation
Indices: 100883120--100883196 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
100883110 CCTCTTATTT
* * * *
100883120 TTTTTA TCTATTTA TTATT- TTTTTA TTATT- TTTTTA TTTTTC TTTTGA
1 TTTTTA T-T-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
100883168 TTTTTA TTTCTA -TTTTA TTATTTTA TTTT
1 TTTTTA TTTTTA TTTTTA -T-TTTTA TTTT
100883197 CAAAGAAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
5 12 0.22
6 29 0.54
7 3 0.06
8 10 0.19
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:100886082 original size:13 final size:13
Alignment explanation
Indices: 100886066--100886098 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
100886056 TTTAATTAAA
*
100886066 TTAGTTAATTAGT
1 TTAGATAATTAGT
100886079 TTAGATAATTAGT
1 TTAGATAATTAGT
100886092 TTA-ATAA
1 TTAGATAA
100886099 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:100890887 original size:47 final size:48
Alignment explanation
Indices: 100890778--100890888 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 48
100890768 CCGGGATAAG
* *
100890778 CACATAGTGCTTCATCGGAATAAATTCGGAACTTTAACATTATAGTATA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACA-TATAGTATA
* *
100890827 CA-A-AGTACTTCATCGGAACAAATCCGGAACTTTAACA-GTAGTCA-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATATAGT-ATA
100890872 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
100890889 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
45 7 0.13
46 3 0.06
47 40 0.75
48 1 0.02
49 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (48 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATATAGTATA
Found at i:100895942 original size:10 final size:11
Alignment explanation
Indices: 100895919--100895947 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
100895909 TGATTGCGTG
100895919 AAAATCTGGAA
1 AAAATCTGGAA
100895930 AAAATCTGGAA
1 AAAATCTGGAA
100895941 AAAATCT
1 AAAATCT
100895948 TGTAGATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (11 bp):
AAAATCTGGAA
Found at i:100899278 original size:16 final size:16
Alignment explanation
Indices: 100899253--100899286 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
100899243 AAATTAATTG
* *
100899253 TCTATTTATATTTATA
1 TCTATCTATATATATA
100899269 TCTATCTATATATATA
1 TCTATCTATATATATA
100899285 TC
1 TC
100899287 ATATATTCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
TCTATCTATATATATA
Found at i:100901165 original size:26 final size:26
Alignment explanation
Indices: 100901117--100901166 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
100901107 TATGGGTTCA
* **
100901117 TTTTAATTGGATACAAATTTTTAAAT
1 TTTTAATTGAATACAAAAATTTAAAT
*
100901143 TTTTAATTGAATAGAAAAATTTAA
1 TTTTAATTGAATACAAAAATTTAA
100901167 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (26 bp):
TTTTAATTGAATACAAAAATTTAAAT
Found at i:100905015 original size:20 final size:21
Alignment explanation
Indices: 100904971--100905015 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
100904961 CCTTCTCTTA
100904971 TCTTTAATTTTGTTTTTACAC
1 TCTTTAATTTTGTTTTTACAC
* *
100904992 -CTTTACTTTTGTTTTT-CTC
1 TCTTTAATTTTGTTTTTACAC
100905011 TCTTT
1 TCTTT
100905016 TGGACTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.11, C:0.18, G:0.04, T:0.67
Consensus pattern (21 bp):
TCTTTAATTTTGTTTTTACAC
Found at i:100908198 original size:17 final size:17
Alignment explanation
Indices: 100908167--100908199 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
100908157 TGTATAAAAC
100908167 TTATTTTATTGTTAATT
1 TTATTTTATTGTTAATT
100908184 TTATTATTATT-TTAAT
1 TTATT-TTATTGTTAAT
100908200 GACATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTATTTTATTGTTAATT
Found at i:100908211 original size:30 final size:30
Alignment explanation
Indices: 100908175--100908237 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
100908165 ACTTATTTTA
100908175 TTGTTAATTTTATTATTATTTTA-ATGACAT
1 TTGTTAATTTTATTATTATTTTAGA-GACAT
*
100908205 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAGAGACAT
100908235 TTG
1 TTG
100908238 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAGAGACAT
Found at i:100908320 original size:18 final size:18
Alignment explanation
Indices: 100908299--100908338 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
100908289 AAAATATTTA
*
100908299 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
100908317 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
100908335 TTTT
1 TTTT
100908339 TAAAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:100912052 original size:20 final size:19
Alignment explanation
Indices: 100912029--100912093 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
100912019 CAAAAAAACA
100912029 TCAAAATAATTTTCAAAGAT
1 TCAAAATAATTTTCAAA-AT
* *
100912049 TCAACATAATTTTTAAAAT
1 TCAAAATAATTTTCAAAAT
*
100912068 TCAAAAT-ATTTATAAAAATT
1 TCAAAATAATTT-TCAAAA-T
100912088 TCAAAA
1 TCAAAA
100912094 CTTATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.10
19 13 0.33
20 22 0.56
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (19 bp):
TCAAAATAATTTTCAAAAT
Found at i:100914075 original size:20 final size:19
Alignment explanation
Indices: 100914028--100914075 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
100914018 AAGGACTTTT
*
100914028 ATTTATTTTATTCCAATCA
1 ATTTATTTAATTCCAATCA
**
100914047 ATTTGATTTAATTTTAATCAA
1 ATTT-ATTTAATTCCAATC-A
100914068 ATTTATTT
1 ATTTATTT
100914076 GTTGACTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTATTTAATTCCAATCA
Found at i:100916918 original size:11 final size:11
Alignment explanation
Indices: 100916902--100916963 Score: 81
Period size: 11 Copynumber: 5.7 Consensus size: 11
100916892 TTGTTCGACC
100916902 ATGATTTGACA
1 ATGATTTGACA
*
100916913 ATGATTCGACA
1 ATGATTTGACA
100916924 ATGATTTGACA
1 ATGATTTGACA
*
100916935 GTGATTTGA-A
1 ATGATTTGACA
* *
100916945 ATGATTCGACT
1 ATGATTTGACA
100916956 ATGATTTG
1 ATGATTTG
100916964 GTATTGGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
10 8 0.19
11 35 0.81
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (11 bp):
ATGATTTGACA
Found at i:100916927 original size:22 final size:22
Alignment explanation
Indices: 100916895--100916961 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
100916885 TATGAACTTG
*
100916895 TTCGACCATGATTTGACAATGA
1 TTCGACAATGATTTGACAATGA
*
100916917 TTCGACAATGATTTGACAGTGA
1 TTCGACAATGATTTGACAATGA
* * *
100916939 TTTGA-AATGATTCGACTATGA
1 TTCGACAATGATTTGACAATGA
100916960 TT
1 TT
100916962 TGGTATTGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 15 0.38
22 24 0.62
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (22 bp):
TTCGACAATGATTTGACAATGA
Found at i:100920852 original size:51 final size:51
Alignment explanation
Indices: 100920776--100920876 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
100920766 CTGATCACAT
*
100920776 TTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTAATCAAATAAGTGTAGCTAAAACTACCACTTATCAC
* * *
100920827 TTATCACTTGTCATTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCA
1 TTATCACTTGTCACTAATCAAATAAGTGTAGCTAAAACTACCACTTATCA
100920877 TTTTTTAGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTAATCAAATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:100920897 original size:72 final size:72
Alignment explanation
Indices: 100920813--100920948 Score: 236
Period size: 72 Copynumber: 1.9 Consensus size: 72
100920803 GTAGCTAAAA
* *
100920813 CTACCACTTATCACTTATCACTTGTCATTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCAT
1 CTACCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAAACTACCACTTATCAT
100920878 TTTTTAG
66 TTTTTAG
* *
100920885 CTACCACTTATCATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCA
1 CTACCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAAACTACCACTTATCA
100920949 CTTGTCATTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.35
Consensus pattern (72 bp):
CTACCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAAACTACCACTTATCAT
TTTTTAG
Found at i:100920948 original size:44 final size:44
Alignment explanation
Indices: 100920899--100921008 Score: 184
Period size: 44 Copynumber: 2.5 Consensus size: 44
100920889 CACTTATCAT
*
100920899 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTGTCACTGATCAGATAAATGTAGCTAAAACTACCAC
* * *
100920943 TTATCACTTGTCATTAATCAGATAAATGTAGCTAAACCTACCAC
1 TTATCACTTGTCACTGATCAGATAAATGTAGCTAAAACTACCAC
100920987 TTATCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
100921009 AGTACTCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.32
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAATGTAGCTAAAACTACCAC
Found at i:100920995 original size:123 final size:118
Alignment explanation
Indices: 100920773--100920992 Score: 336
Period size: 116 Copynumber: 1.8 Consensus size: 118
100920763 ACACTGATCA
100920773 CATTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAACT--CAC---TCACTTATCACTTGT
* * *
100920838 CATTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCATTTTTTAGCTACCACTTAT
61 CATTAATCAAATAAATGTAGCTAAACCTACCACTTATCATTTTTTAGCTACCACTTAT
*
100920896 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACT-AC-CACTTATCACTTGTCATTA
1 CATTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAACTCACTCACTTATCACTTGTCATTA
*
100920959 ATCAGATAAATGTAGCTAAACCTACCACTTATCA
66 ATCAAATAAATGTAGCTAAACCTACCACTTATCA
100920993 CTTGTCACTG
Statistics
Matches: 92, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
116 49 0.53
120 2 0.02
123 41 0.45
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (118 bp):
CATTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAACTCACTCACTTATCACTTGTCATTA
ATCAAATAAATGTAGCTAAACCTACCACTTATCATTTTTTAGCTACCACTTAT
Found at i:100922253 original size:51 final size:51
Alignment explanation
Indices: 100922197--100922319 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 51
100922187 TCCCAAACTT
* * **
100922197 ACTTCATACTTCATCCGGA-ATTATTACTTTGTTGTTCTAGCTTCAACAAGA
1 ACTTCATATTTCATCCGGATA-TATTACTTTATTACTCTAGCTTCAACAAGA
*
100922248 ACTTCATATTTCATCCGGATATATTACTTTATTACTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGATATATTACTTTATTACTCTAGCTTCAACAAGA
* *
100922299 GCTTCATATTTCATCCAGATA
1 ACTTCATATTTCATCCGGATA
100922320 ACTTAGTTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (51 bp):
ACTTCATATTTCATCCGGATATATTACTTTATTACTCTAGCTTCAACAAGA
Found at i:100922812 original size:16 final size:16
Alignment explanation
Indices: 100922787--100922818 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100922777 TGTTCTTCGA
100922787 ATGCTCTTTGTTTCTT
1 ATGCTCTTTGTTTCTT
*
100922803 ATGCTGTTTGTTTCTT
1 ATGCTCTTTGTTTCTT
100922819 TTTCCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.16, G:0.16, T:0.62
Consensus pattern (16 bp):
ATGCTCTTTGTTTCTT
Found at i:100925567 original size:21 final size:22
Alignment explanation
Indices: 100925515--100925569 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
100925505 GTGTAATAGT
*
100925515 TTTTGGGTATTTTCGAGTGTGAG
1 TTTTGAGT-TTTTCGAGTGTGAG
* * *
100925538 TTGTAAGTTTTTCGAGT-TGTG
1 TTTTGAGTTTTTCGAGTGTGAG
100925559 TTTTGAGTTTT
1 TTTTGAGTTTT
100925570 AGAATACTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.13, C:0.04, G:0.29, T:0.55
Consensus pattern (22 bp):
TTTTGAGTTTTTCGAGTGTGAG
Found at i:100928429 original size:25 final size:23
Alignment explanation
Indices: 100928377--100928429 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
100928367 AAAAAATCGT
100928377 ACAATATTAAAATAATAACAACA
1 ACAATATTAAAATAATAACAACA
*
100928400 A-AATATTAGTAATATAATAGCAA-A
1 ACAATATTA--AA-ATAATAACAACA
100928424 ACAATA
1 ACAATA
100928430 GCAAAATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
22 7 0.28
23 1 0.04
24 4 0.16
25 13 0.52
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (23 bp):
ACAATATTAAAATAATAACAACA
Found at i:100929699 original size:16 final size:16
Alignment explanation
Indices: 100929678--100929712 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
100929668 GATATAACCT
* *
100929678 AAAATAACTCAAATAC
1 AAAATAACCCAAACAC
100929694 AAAATAACCCAAACAC
1 AAAATAACCCAAACAC
100929710 AAA
1 AAA
100929713 GCCATCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.23, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAATAACCCAAACAC
Found at i:100930352 original size:20 final size:17
Alignment explanation
Indices: 100930328--100930370 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
100930318 TAATTAGAGA
100930328 AATTAAATCGTAATTTTTT
1 AATTAAAT--TAATTTTTT
*
100930347 ATATTATATTAATTTTTT
1 A-ATTAAATTAATTTTTT
100930365 AATTAA
1 AATTAA
100930371 GGGTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 1 0.05
20 6 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
AATTAAATTAATTTTTT
Found at i:100941468 original size:25 final size:25
Alignment explanation
Indices: 100941438--100941487 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
100941428 AAATATGAGA
*
100941438 TTATTTTCTAAATATGGGTTGTAGG
1 TTATTTTCTAAATATGAGTTGTAGG
100941463 TTATTTTCTAAATATGAGTTGTAGG
1 TTATTTTCTAAATATGAGTTGTAGG
100941488 AGTTCATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (25 bp):
TTATTTTCTAAATATGAGTTGTAGG
Found at i:100942949 original size:27 final size:27
Alignment explanation
Indices: 100942919--100943000 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
100942909 ACCAACAATG
100942919 GACGGAATTTCCTGATAAAACTACCTT
1 GACGGAATTTCCTGATAAAACTACCTT
* ** * * *
100942946 GACGCACGTTCAC-CATAACCAAC-A-ATG
1 GACGGAATTTC-CTGATAA--AACTACCTT
100942973 GACGGAATTTCCTGATAAAACTACCTT
1 GACGGAATTTCCTGATAAAACTACCTT
100943000 G
1 G
100943001 TAAATTATCA
Statistics
Matches: 37, Mismatches: 12, Indels: 12
0.61 0.20 0.20
Matches are distributed among these distances:
25 3 0.08
26 2 0.05
27 27 0.73
28 2 0.05
29 3 0.08
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (27 bp):
GACGGAATTTCCTGATAAAACTACCTT
Found at i:100942953 original size:54 final size:54
Alignment explanation
Indices: 100942890--100943000 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
100942880 TGAAGATAAG
*
100942890 TTGATGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
1 TTGACGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
100942944 TTGACGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
1 TTGACGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
100942998 TTG
1 TTG
100943001 TAAATTATCA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (54 bp):
TTGACGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
Found at i:100948397 original size:24 final size:24
Alignment explanation
Indices: 100948362--100948410 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
100948352 TTCAATTGAA
*
100948362 ATTTTGCCTAATTGAACCTCCCTC
1 ATTTTGCATAATTGAACCTCCCTC
*
100948386 ATTTTGCATAATTGAACCTTCCTC
1 ATTTTGCATAATTGAACCTCCCTC
100948410 A
1 A
100948411 AAGGGTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (24 bp):
ATTTTGCATAATTGAACCTCCCTC
Found at i:100962752 original size:19 final size:19
Alignment explanation
Indices: 100962718--100962754 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
100962708 AAAAATTTAA
**
100962718 AAAAAAAATCTTAAAATTG
1 AAAAAAAATCAAAAAATTG
100962737 AAAAAAAATCAAAAAATT
1 AAAAAAAATCAAAAAATT
100962755 TATAAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAAAAAATCAAAAAATTG
Found at i:100962951 original size:31 final size:31
Alignment explanation
Indices: 100962894--100962961 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
100962884 CTTTAACAAA
* * *
100962894 ATAAAAATAATTTTTAAAATTCTAAAAATAT
1 ATAAAAATAATTATTAAAAATATAAAAATAT
100962925 ATAACAAATAA-TATTAAAAATATAAAAATA-
1 ATAA-AAATAATTATTAAAAATATAAAAATAT
100962955 A-AAAAAT
1 ATAAAAAT
100962962 TCAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 4 0.12
29 2 0.06
30 1 0.03
31 20 0.61
32 6 0.18
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (31 bp):
ATAAAAATAATTATTAAAAATATAAAAATAT
Found at i:100963116 original size:17 final size:17
Alignment explanation
Indices: 100963086--100963119 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100963076 TCAACTGATC
**
100963086 AATTTTTTTTAATTTTT
1 AATTTTTTAAAATTTTT
100963103 AATTTTTTAAAATTTTT
1 AATTTTTTAAAATTTTT
100963120 TATATAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTTTTAAAATTTTT
Found at i:100965234 original size:24 final size:25
Alignment explanation
Indices: 100965207--100965256 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
100965197 AATATATAAT
*
100965207 ATTAATTTTAAATATTT-TTAAGTA
1 ATTAATATTAAATATTTATTAAGTA
*
100965231 ATTAATATTAATTATTTATTAAGTA
1 ATTAATATTAAATATTTATTAAGTA
100965256 A
1 A
100965257 ACAAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTAATATTAAATATTTATTAAGTA
Found at i:100985020 original size:7 final size:7
Alignment explanation
Indices: 100985008--100985032 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
100984998 TTAAAAAACC
100985008 CAAATTT
1 CAAATTT
100985015 CAAATTT
1 CAAATTT
100985022 CAAATTT
1 CAAATTT
100985029 CAAA
1 CAAA
100985033 ACTTGACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (7 bp):
CAAATTT
Found at i:100986364 original size:12 final size:12
Alignment explanation
Indices: 100986347--100986371 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100986337 TCCTTTAGAT
100986347 TTTTCAACATTG
1 TTTTCAACATTG
100986359 TTTTCAACATTG
1 TTTTCAACATTG
100986371 T
1 T
100986372 CCCCTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTTCAACATTG
Found at i:100989598 original size:38 final size:37
Alignment explanation
Indices: 100989548--100989731 Score: 140
Period size: 38 Copynumber: 4.7 Consensus size: 37
100989538 ATAGTATTAT
*
100989548 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
100989585 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
100989625 ATATTTAATAATAATTATTTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
100989667 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
100989705 ATATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
100989732 TTTTTATTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
37 28 0.24
38 37 0.32
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.03
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:100989616 original size:18 final size:18
Alignment explanation
Indices: 100989595--100989748 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
100989585 ATATTAAGAA
100989595 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
100989613 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
100989628 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
100989643 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
100989662 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
100989677 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
100989696 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
100989715 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
100989733 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
100989749 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:100989618 original size:56 final size:55
Alignment explanation
Indices: 100989557--100989748 Score: 208
Period size: 56 Copynumber: 3.3 Consensus size: 55
100989547 TATATTATGA
100989557 TTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
1 TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* * * * *
100989613 TTTTATTAAATTATATTTAATAATAATT-ATTTTAA-ATTATATTATATAGTATTATATATTAT
1 TTTTATTAAATTATA--TAAGAATATTTAATATTAAGA--ATTTTAT-TA--AAT-TATA-TAT
100989675 GATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
1 --TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
100989733 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
100989749 TTAATAATAA
Statistics
Matches: 112, Mismatches: 10, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
55 8 0.07
56 30 0.27
57 15 0.13
58 5 0.04
59 4 0.04
60 4 0.04
61 4 0.04
62 5 0.04
63 15 0.13
64 18 0.16
65 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (55 bp):
TTTTATTAAATTATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:100989669 original size:120 final size:120
Alignment explanation
Indices: 100989530--100989831 Score: 568
Period size: 120 Copynumber: 2.5 Consensus size: 120
100989520 ATTATTAATC
100989530 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
*
100989595 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
100989650 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
100989715 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
* **
100989770 TATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAA
100989832 TTTTTTTCTA
Statistics
Matches: 178, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 178 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
Found at i:100990107 original size:16 final size:16
Alignment explanation
Indices: 100990086--100990127 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
100990076 TTATTAAATT
*
100990086 ATATATTTTAATTATA
1 ATATATTTTAATAATA
100990102 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
100990117 AT-TATGTTTAA
1 ATATAT-TTTAA
100990128 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:100990112 original size:15 final size:15
Alignment explanation
Indices: 100990077--100990118 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
100990067 TTAAGAATTT
*
100990077 TATTAAATTAT-ATA
1 TATTTAATTATAATA
100990091 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
100990105 TATTTAATAATAAT
1 TATTTAATTATAAT
100990119 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:100990264 original size:16 final size:16
Alignment explanation
Indices: 100990243--100990284 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
100990233 TTATTAAATT
*
100990243 ATATATTTTAATTATA
1 ATATATTTTAATAATA
100990259 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
100990274 AT-TATGTTTAA
1 ATATAT-TTTAA
100990285 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:100990269 original size:15 final size:15
Alignment explanation
Indices: 100990234--100990275 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
100990224 TTAAGAATTT
*
100990234 TATTAAATTAT-ATA
1 TATTTAATTATAATA
100990248 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
100990262 TATTTAATAATAAT
1 TATTTAATTATAAT
100990276 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:100990298 original size:75 final size:75
Alignment explanation
Indices: 100990219--100990457 Score: 180
Period size: 75 Copynumber: 3.1 Consensus size: 75
100990209 AATTTCTGCT
100990219 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
100990284 AATATGATTA
66 AATATGATTA
* ** * * * ** ** * * *
100990294 AATTATTTATTATTGATATT-AATAATCTTATTAAAATT-TAA-ATA-ACAATAACAATAATAAT
1 AATTATTAAGAATT-TTATTAAATTAT-ATATTTTAATTATAATATATTTAATAATAATTAT-GT
* ** *
100990355 TTACCAAAACAAATTTCTGCT
63 TTA--AATA-TGA--T-T--A
*
100990376 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
100990441 AATATGATTA
66 AATATGATTA
*
100990451 AAATATT
1 AATTATT
100990458 TATTATTGAT
Statistics
Matches: 113, Mismatches: 36, Indels: 30
0.63 0.20 0.17
Matches are distributed among these distances:
73 10 0.09
74 7 0.06
75 25 0.22
76 15 0.13
77 2 0.02
78 1 0.01
79 1 0.01
80 2 0.02
81 15 0.13
82 18 0.16
83 7 0.06
84 10 0.09
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:100990349 original size:157 final size:157
Alignment explanation
Indices: 100990063--100990534 Score: 890
Period size: 157 Copynumber: 3.0 Consensus size: 157
100990053 AAGAATATTG
100990063 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
100990128 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
100990193 ATAATTTACCAAAACAAATTTCTGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
100990220 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
100990285 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
100990350 ATAATTTACCAAAACAAATTTCTGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
*
100990377 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
* *
100990442 ATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
* * *
100990507 ATCATTTACTAAAACAAATTTATGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
100990534 A
1 A
100990535 GGGTATTCTA
Statistics
Matches: 309, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 309 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTCTGCTA
Found at i:100990415 original size:18 final size:17
Alignment explanation
Indices: 100990387--100990421 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
100990377 ATTATTAAGA
*
100990387 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
100990404 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
100990422 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:100990678 original size:16 final size:16
Alignment explanation
Indices: 100990657--100990724 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
100990647 GATTTGCTAT
100990657 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
100990673 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
100990689 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
100990705 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
100990721 TACA
1 TACA
100990725 GTGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:100993501 original size:18 final size:18
Alignment explanation
Indices: 100993465--100993502 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
100993455 AAGAAGAAAT
*
100993465 AAAAAAAATGAAAATAGA
1 AAAAAAAATGAAAAGAGA
100993483 AAAAAAAAT-AAAGAGAGA
1 AAAAAAAATGAAA-AGAGA
100993501 AA
1 AA
100993503 TAATGTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (18 bp):
AAAAAAAATGAAAAGAGA
Found at i:100993527 original size:15 final size:15
Alignment explanation
Indices: 100993484--100993527 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
100993474 GAAAATAGAA
100993484 AAAAAAAT-AAAGAG
1 AAAAAAATGAAAGAG
* *
100993498 AGAAATAATGTAAGAG
1 A-AAAAAATGAAAGAG
100993514 AAAAAAATGAAAGA
1 AAAAAAATGAAAGA
100993528 ATTAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.04
15 17 0.71
16 6 0.25
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.11
Consensus pattern (15 bp):
AAAAAAATGAAAGAG
Found at i:100994842 original size:15 final size:15
Alignment explanation
Indices: 100994816--100994848 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
100994806 ATATAATTAT
100994816 TATAATTTAACATATA
1 TATAATTTAACATA-A
100994832 TATAA-TTAACATAA
1 TATAATTTAACATAA
100994846 TAT
1 TAT
100994849 TTTTATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 8 0.47
16 5 0.29
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
TATAATTTAACATAA
Found at i:100995164 original size:21 final size:21
Alignment explanation
Indices: 100995140--100995240 Score: 68
Period size: 21 Copynumber: 4.9 Consensus size: 21
100995130 TCAACTCAAC
100995140 ATTAATATTATTTAAAAAACA
1 ATTAATATTATTTAAAAAACA
* *
100995161 ATTAATATTA-TTATAAATCA
1 ATTAATATTATTTAAAAAACA
* * **
100995181 ATATAA-A--AGTCAACTCAAC-
1 AT-TAATATTATTTAA-AAAACA
*
100995200 ATTAATATTTATTTAAAAAATA
1 ATTAATA-TTATTTAAAAAACA
100995222 ATTAATATTATTATAAAAA
1 ATTAATATTATT-TAAAAA
100995241 TATTTTTGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 17
0.67 0.14 0.19
Matches are distributed among these distances:
18 4 0.07
19 5 0.08
20 13 0.22
21 20 0.34
22 17 0.29
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (21 bp):
ATTAATATTATTTAAAAAACA
Found at i:100998273 original size:28 final size:29
Alignment explanation
Indices: 100998240--100998296 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
100998230 TTTAATTCAA
*
100998240 TGTACAATTCA-ATAC-ATAAATTTTGATT
1 TGTACAATT-ATATACAATAAACTTTGATT
100998268 TGTACAATTATATACAATAAACTTTGATT
1 TGTACAATTATATACAATAAACTTTGATT
100998297 ATGATTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
28 13 0.50
29 12 0.46
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (29 bp):
TGTACAATTATATACAATAAACTTTGATT
Found at i:100998341 original size:24 final size:24
Alignment explanation
Indices: 100998309--100998355 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
100998299 GATTCAAATG
100998309 TATACACCGAACTTTTATTTTGAA
1 TATACACCGAACTTTTATTTTGAA
100998333 TATACACCGAACTTTTATTTTGA
1 TATACACCGAACTTTTATTTTGA
100998356 TTCAATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.43
Consensus pattern (24 bp):
TATACACCGAACTTTTATTTTGAA
Found at i:100998367 original size:28 final size:28
Alignment explanation
Indices: 100998287--100998367 Score: 80
Period size: 24 Copynumber: 2.9 Consensus size: 28
100998277 ATATACAATA
* *
100998287 AACTTTGATTATGATTCAAATGTATACACCG
1 AACTTTTATTTTGATTC-AAT-T-TACACCG
*
100998318 AACTTTTATTTTG----AATATACACCG
1 AACTTTTATTTTGATTCAATTTACACCG
100998342 AACTTTTATTTTGATTCAATTTACAC
1 AACTTTTATTTTGATTCAATTTACAC
100998368 ATTTAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
24 20 0.48
26 3 0.07
28 8 0.19
31 11 0.26
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (28 bp):
AACTTTTATTTTGATTCAATTTACACCG
Found at i:101001848 original size:240 final size:240
Alignment explanation
Indices: 101001177--101001850 Score: 1118
Period size: 239 Copynumber: 2.8 Consensus size: 240
101001167 ATGCTTATGT
* *
101001177 TGGTTTTGGATAAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCACCA
1 TGGTTTTGGATTAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCA
101001242 AACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTG
66 AACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTG
* *
101001307 ATGGGTAATTTTGAATGCATTGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGA
131 GTGGGCAATTTTGAATGCATTGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGA
101001372 AGACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
196 AGACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
101001417 TGGTTTTGGA-TAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCA
1 TGGTTTTGGATTAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCA
101001481 AACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTG
66 AACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTG
*
101001546 GTGGGCAATTTTGAATGCAATGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGA
131 GTGGGCAATTTTGAATGCATTGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGA
101001611 AGACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
196 AGACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
* *
101001656 TGGTTTTGGATTAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTCTCATAATCA
1 TGGTTTTGGATTAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCA
* * * * * * * * * *
101001721 AAATTTTAAGCAAAACTTTAACTTTCAGGATGCTACTGTCTCAAATCTCCATTCTTTGTACTTTG
66 AACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTG
* * * * * *
101001786 GTGGGCAATTTTGAATGTATTGATATAGCTAAT-AGCTTTTATGTTGTTAAGTTTGATAATGAAG
131 GTGGGCAATTTTGAATGCATTGATATGGGTAATGA-CTTCTATGTCGTTAAGTTTAATAATGAAG
101001850 A
195 A
101001851 GGATAAGGCT
Statistics
Matches: 408, Mismatches: 24, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
239 235 0.58
240 173 0.42
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (240 bp):
TGGTTTTGGATTAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCA
AACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTG
GTGGGCAATTTTGAATGCATTGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGA
AGACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
Found at i:101004660 original size:59 final size:60
Alignment explanation
Indices: 101004578--101004705 Score: 186
Period size: 59 Copynumber: 2.1 Consensus size: 60
101004568 ATTTATCTAG
** *
101004578 ATATTAATATGAGATATTAAATTTAACTTAAAATTTATCTAAATAGTATTTTATTAATTTA
1 ATATTAATATGAGA-ATTAAATTTAACTTAAAATTTATCTAAATAAAATTATATTAATTTA
* * *
101004639 ATATTAATATGAG-ATTAAATTTAATTTAATATTTATCTAGATAAAATTATATTAATTTA
1 ATATTAATATGAGAATTAAATTTAACTTAAAATTTATCTAAATAAAATTATATTAATTTA
101004698 ATATTAAT
1 ATATTAAT
101004706 TTGATTAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 48 0.79
61 13 0.21
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (60 bp):
ATATTAATATGAGAATTAAATTTAACTTAAAATTTATCTAAATAAAATTATATTAATTTA
Found at i:101004697 original size:31 final size:31
Alignment explanation
Indices: 101004600--101004702 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
101004590 GATATTAAAT
* * * ** *
101004600 TTAACTTAAAATTTATCTAAATAGTATTTTA
1 TTAATTTAATATTTATCTAGATAAAATTATA
* * *
101004631 TTAATTTAATATTAATATGAGAT-TAA--AT-
1 TTAATTTAATATTTATCT-AGATAAAATTATA
101004659 TTAATTTAATATTTATCTAGATAAAATTATA
1 TTAATTTAATATTTATCTAGATAAAATTATA
101004690 TTAATTTAATATT
1 TTAATTTAATATT
101004703 AATTTGATTA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
27 4 0.07
28 18 0.32
29 1 0.02
30 2 0.04
31 28 0.50
32 3 0.05
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.50
Consensus pattern (31 bp):
TTAATTTAATATTTATCTAGATAAAATTATA
Found at i:101004729 original size:20 final size:20
Alignment explanation
Indices: 101004689--101004729 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
101004679 ATAAAATTAT
*
101004689 ATTAATTTAATATTAATTTG
1 ATTAATTTAATATTAAGTTG
101004709 ATTAATTCTAATATT-AGTTG
1 ATTAATT-TAATATTAAGTTG
101004729 A
1 A
101004730 ACTGTCTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTAATTTAATATTAAGTTG
Found at i:101004912 original size:16 final size:16
Alignment explanation
Indices: 101004891--101004921 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101004881 GAACTTTAAA
*
101004891 GAAATTACTAAATTAT
1 GAAATTACGAAATTAT
101004907 GAAATTACGAAATTA
1 GAAATTACGAAATTA
101004922 CCCCATTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (16 bp):
GAAATTACGAAATTAT
Found at i:101015150 original size:28 final size:28
Alignment explanation
Indices: 101015101--101015189 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
101015091 GTCAATAGTA
* *
101015101 AATTTTTTGAATTTTTCCATTTGTTTTC
1 AATTTTTTGAATTTTTCAATTTATTTTC
* *
101015129 AATTTATTTTAATTTTT-AATTTATTTTGT
1 AATTT-TTTGAATTTTTCAATTTATTTT-C
* * *
101015158 AATTTTCTAAAATTTT-AATTATATTTT-
1 AATTTTTTGAATTTTTCAATT-TATTTTC
101015185 AATTT
1 AATTT
101015190 ATTAAGCCTA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 5 0.10
28 25 0.49
29 21 0.41
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (28 bp):
AATTTTTTGAATTTTTCAATTTATTTTC
Found at i:101015161 original size:29 final size:28
Alignment explanation
Indices: 101015124--101015192 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
101015114 TTTCCATTTG
* *
101015124 TTTTCAATTTATTTTAATTTTTAATT-TA
1 TTTT-AATTTATTTAAAATTTTAATTATA
*
101015152 TTTTGTAATTT-TCTAAAATTTTAATTATA
1 -TTT-TAATTTATTTAAAATTTTAATTATA
101015181 TTTTAATTTATT
1 TTTTAATTTATT
101015193 AAGCCTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
27 6 0.18
28 16 0.48
29 10 0.30
30 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTAATTTATTTAAAATTTTAATTATA
Found at i:101015557 original size:26 final size:30
Alignment explanation
Indices: 101015512--101015565 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
101015502 TAAAATGGCA
101015512 ATAAAAAAATAATTTGGGTATC-ACTTGTG
1 ATAAAAAAATAATTTGGGTATCAACTTGTG
101015541 ATAAAAAAA-AA-TT-GGTATCAACTTG
1 ATAAAAAAATAATTTGGGTATCAACTTG
101015566 AAAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.25
27 7 0.29
28 2 0.08
29 9 0.38
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.31
Consensus pattern (30 bp):
ATAAAAAAATAATTTGGGTATCAACTTGTG
Found at i:101017133 original size:56 final size:58
Alignment explanation
Indices: 101017010--101017138 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 58
101017000 TTGGGACCTA
* * * * *
101017010 AACTTGGTAATTATTCGCACATTGAAATTTGAACTTTTTTTGTCTAAGTTAGTCTCTG
1 AACTTGGCAATTATTCCCACATTGAAACTTGAAATTTTTTTGTCTAAGTTACTCTCTG
* * *
101017068 AA-TTCGGCAATTGTTCCCACATTGGAGCTTGAAATTTTTTT-T-TAAGTTACTC-CATG
1 AACTT-GGCAATTATTCCCACATTGAAACTTGAAATTTTTTTGTCTAAGTTACTCTC-TG
101017124 AACTTGGCAATTATT
1 AACTTGGCAATTATT
101017139 TTCAAATTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
55 1 0.02
56 22 0.37
57 5 0.08
58 31 0.53
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (58 bp):
AACTTGGCAATTATTCCCACATTGAAACTTGAAATTTTTTTGTCTAAGTTACTCTCTG
Found at i:101020693 original size:21 final size:21
Alignment explanation
Indices: 101020668--101020708 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
101020658 TACGGTATGT
* *
101020668 TTATTTTGTCATAATGGAATG
1 TTATTATGTCAGAATGGAATG
*
101020689 TTATTATGTGAGAATGGAAT
1 TTATTATGTCAGAATGGAAT
101020709 AGAGTTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (21 bp):
TTATTATGTCAGAATGGAATG
Found at i:101020965 original size:41 final size:41
Alignment explanation
Indices: 101020920--101021128 Score: 216
Period size: 41 Copynumber: 5.1 Consensus size: 41
101020910 GCAAAAATTG
* *
101020920 TAAAACACAGAGCAATAGCGGCG-TTTT-ATAAAAAACGCCGG
1 TAAAACACAGAGCATTAGCGGCGCTTTTGAT--AAAACGCCGC
* * * *
101020961 TAAAA-ACAAAGCAATAGCGGCG-TTTTAGTAAAAAATGCCGC
1 TAAAACACAGAGCATTAGCGGCGCTTTT-G-ATAAAACGCCGC
* *
101021002 TAAAA-ACAGAGCATTAACGGCGCTTTTGGTAAAACGCCGC
1 TAAAACACAGAGCATTAGCGGCGCTTTTGATAAAACGCCGC
* *
101021042 TAAAGAC-CCGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAA-ACACAGAGCATTAGCGGCGCTTTTGATAAAACGCCGC
*
101021083 TAAATAC-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAA-ACACAGAGCATTAGCGGCGCTTTTGATAAAACGCCGC
101021124 TAAAA
1 TAAAA
101021129 ATCATATAAC
Statistics
Matches: 148, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
40 34 0.23
41 109 0.74
42 4 0.03
43 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
TAAAACACAGAGCATTAGCGGCGCTTTTGATAAAACGCCGC
Found at i:101021303 original size:14 final size:15
Alignment explanation
Indices: 101021284--101021335 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
101021274 TTAATTATCA
101021284 TTAT-AGTTTAAGGT
1 TTATGAGTTTAAGGT
* *
101021298 TTAT-AGTTAAAGAT
1 TTATGAGTTTAAGGT
* *
101021312 ATATGGGTTTAAGGT
1 TTATGAGTTTAAGGT
101021327 TTATGAGTT
1 TTATGAGTT
101021336 AACTATGGTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (15 bp):
TTATGAGTTTAAGGT
Found at i:101021354 original size:7 final size:7
Alignment explanation
Indices: 101021342--101021448 Score: 58
Period size: 7 Copynumber: 15.0 Consensus size: 7
101021332 AGTTAACTAT
101021342 GGTTTAG
1 GGTTTAG
*
101021349 GGTTTAA
1 GGTTTAG
*
101021356 GGTTTAA
1 GGTTTAG
* *
101021363 TGATTAG
1 GGTTTAG
101021370 GG-TT-G
1 GGTTTAG
*
101021375 GAGTTTAA
1 G-GTTTAG
*
101021383 GGTGTAAG
1 GGT-TTAG
101021391 GGTTTAG
1 GGTTTAG
*
101021398 GGTTAAG
1 GGTTTAG
101021405 GGTTTAG
1 GGTTTAG
*
101021412 TGTTTATG
1 GGTTTA-G
*
101021420 GG-ATACG
1 GGTTTA-G
*
101021427 GGTTAAG
1 GGTTTAG
101021434 AGGTTTAG
1 -GGTTTAG
101021442 GGTTTAG
1 GGTTTAG
101021449 ATTAATTAGT
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
5 2 0.03
6 3 0.04
7 55 0.73
8 15 0.20
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.38
Consensus pattern (7 bp):
GGTTTAG
Found at i:101024193 original size:21 final size:22
Alignment explanation
Indices: 101024151--101024194 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
101024141 GACAATTTAT
* *
101024151 TTGAATCTGTCTAATTGTATTA
1 TTGAATCTGTCTAAGTGAATTA
*
101024173 TTGAA-CTGTCTTAGTGAATTA
1 TTGAATCTGTCTAAGTGAATTA
101024194 T
1 T
101024195 GTGGTTTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (22 bp):
TTGAATCTGTCTAAGTGAATTA
Found at i:101025723 original size:43 final size:43
Alignment explanation
Indices: 101025488--101025759 Score: 268
Period size: 43 Copynumber: 6.3 Consensus size: 43
101025478 AAGCTTATAT
* * *
101025488 TCTTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGT--TTG
1 TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGG
* *
101025529 T-TTCGTAGCGGCGTTTGTAAAAAAAGCGCTGCTAAAGGTCATGG
1 TCTT--TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGG
** * *
101025573 T-TTGTAATGGCGTTT-TCGAGAAAAGCGCCGTTAAAGGTCATGG
1 TCTT-TAGCGGCGTTTGT-GAAAAAAGCGCCGCTAAAGGTCATGG
* * ** * *
101025616 TCTGTAGCGGCGTTTGCGGGAAAAGCGCTGTTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGG
*
101025659 TCTTTAGCGGCGTTT-TCGAAAAAAGCGCCGTTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGT-GAAAAAAGCGCCGCTAAAGGTCATGG
* * * *
101025702 TCTTTAGCGGCGTTTGTGAAAAAAGTGTCGCTAAAGGTTATAG
1 TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGG
*
101025745 TCTTTAGTGGCGTTT
1 TCTTTAGCGGCGTTT
101025760 TTTTAAATAA
Statistics
Matches: 194, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
40 2 0.01
41 1 0.01
42 31 0.16
43 153 0.79
44 7 0.04
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.31
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGG
Found at i:101025726 original size:86 final size:86
Alignment explanation
Indices: 101025488--101025760 Score: 315
Period size: 86 Copynumber: 3.2 Consensus size: 86
101025478 AAGCTTATAT
* * * *
101025488 TCTTTAGCGGCGTTTGT-GAGAAAAGTGCCGCTAAAGGT--TTGT-TTCGTAGCGGCGTTTGTAA
1 TCTTTAGCGGCGTTT-TCGAGAAAAGCGCCGTTAAAGGTCATGGTCTT--TAGCGGCGTTTGTGA
101025549 AAAAAGCGCTGCTAAAGGTCATGG
63 AAAAAGCGCTGCTAAAGGTCATGG
** * * **
101025573 T-TTGTAATGGCGTTTTCGAGAAAAGCGCCGTTAAAGGTCATGGTCTGTAGCGGCGTTTGCGGGA
1 TCTT-TAGCGGCGTTTTCGAGAAAAGCGCCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAAA
*
101025637 AAAGCGCTGTTAAAGGTCATGG
65 AAAGCGCTGCTAAAGGTCATGG
*
101025659 TCTTTAGCGGCGTTTTCGAAAAAAGCGCCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAAAA
1 TCTTTAGCGGCGTTTTCGAGAAAAGCGCCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAAAA
* * *
101025724 AAGTG-TCGCTAAAGGTTATAG
66 AAGCGCT-GCTAAAGGTCATGG
*
101025745 TCTTTAGTGGCGTTTT
1 TCTTTAGCGGCGTTTT
101025761 TTTAAATAAA
Statistics
Matches: 158, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
84 3 0.02
85 30 0.19
86 119 0.75
87 5 0.03
88 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (86 bp):
TCTTTAGCGGCGTTTTCGAGAAAAGCGCCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAAAA
AAGCGCTGCTAAAGGTCATGG
Found at i:101031564 original size:90 final size:91
Alignment explanation
Indices: 101031408--101031590 Score: 228
Period size: 90 Copynumber: 2.0 Consensus size: 91
101031398 CTCCTATTTG
* *
101031408 TTTTGCACTCAATTGGATACTTAAACTTTCAAAATGCATCAAAAATGCCTTCAAGCTTAAAAAAA
1 TTTTGCACTCAATTGGATACTTAAACTTTCAAAATGCATCAAAAAAGCCTTCAAACTTAAAAAAA
**
101031473 AAA-CAATTAAGCCCCTGCTTTTTTT
66 AAAGCAATTAAGCCCCCCCTTTTTTT
* * * ****
101031498 TTTTGCACTCAATTGTATACTTAAA-TTGTCAAAATGCAT-AAAAAAGAGCTTCAAATTTTTTCA
1 TTTTGCACTCAATTGGATACTTAAACTT-TCAAAATGCATCAAAAAAG-CCTTCAAACTTAAAAA
101031561 AAAAAGCAATTAAGCCCCCCCTTTTTTT
64 AAAAAGCAATTAAGCCCCCCCTTTTTTT
101031589 TT
1 TT
101031591 CTTTTTTTTG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
89 8 0.10
90 49 0.62
91 22 0.28
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.36
Consensus pattern (91 bp):
TTTTGCACTCAATTGGATACTTAAACTTTCAAAATGCATCAAAAAAGCCTTCAAACTTAAAAAAA
AAAGCAATTAAGCCCCCCCTTTTTTT
Found at i:101031770 original size:9 final size:9
Alignment explanation
Indices: 101031734--101031828 Score: 70
Period size: 9 Copynumber: 10.4 Consensus size: 9
101031724 ATATGACAAA
101031734 AAAAATTAT
1 AAAAATTAT
101031743 AAAAA--AT
1 AAAAATTAT
*
101031750 AAAAATCAAT
1 AAAAAT-TAT
101031760 AAAAATTAT
1 AAAAATTAT
101031769 AAAAATTAT
1 AAAAATTAT
* *
101031778 TAAACTT-T
1 AAAAATTAT
**
101031786 AAAAAAAAAT
1 -AAAAATTAT
*
101031796 AAAATTTTAT
1 AAAA-ATTAT
*
101031806 AAAATTTTAT
1 AAAA-ATTAT
101031816 AAAAATTAT
1 AAAAATTAT
101031825 AAAA
1 AAAA
101031829 TGCATAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
7 7 0.10
8 1 0.01
9 36 0.52
10 25 0.36
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:101031770 original size:19 final size:18
Alignment explanation
Indices: 101031734--101031828 Score: 61
Period size: 19 Copynumber: 5.2 Consensus size: 18
101031724 ATATGACAAA
*
101031734 AAAAATTATAAAAA--AT
1 AAAAATAATAAAAATTAT
101031750 AAAAATCAATAAAAATTAT
1 AAAAAT-AATAAAAATTAT
* * *
101031769 AAAAATTATTAAACTT-T
1 AAAAATAATAAAAATTAT
* *
101031786 AAAAAAAAATAAAATTTTAT
1 -AAAAATAATAAAA-ATTAT
* *
101031806 AAAATTTTATAAAAATTAT
1 AAAA-ATAATAAAAATTAT
101031825 AAAA
1 AAAA
101031829 TGCATAAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
16 6 0.10
17 8 0.13
18 17 0.28
19 22 0.37
20 7 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATAATAAAAATTAT
Found at i:101031822 original size:11 final size:10
Alignment explanation
Indices: 101031794--101031829 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
101031784 TTAAAAAAAA
101031794 ATAAAATTTT
1 ATAAAATTTT
101031804 ATAAAATTTT
1 ATAAAATTTT
*
101031814 ATAAAA-ATT
1 ATAAAATTTT
101031823 ATAAAAT
1 ATAAAAT
101031830 GCATAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:101032141 original size:27 final size:26
Alignment explanation
Indices: 101032111--101032167 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 26
101032101 TTTTTCTAAT
*
101032111 TTTTAATAAAAAATAAATATTTTTTTA
1 TTTTAATAAAAAATAAATA-ATTTTTA
* * * *
101032138 TTTTTATTAAAATTTAATAATTTTTA
1 TTTTAATAAAAAATAAATAATTTTTA
101032164 TTTT
1 TTTT
101032168 TTTGGTCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTAATAAAAAATAAATAATTTTTA
Found at i:101034223 original size:20 final size:20
Alignment explanation
Indices: 101034198--101034237 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
101034188 AACTGCCCTG
101034198 TTCAATATCACTCAAACCAC
1 TTCAATATCACTCAAACCAC
101034218 TTCAATATCACTCAAACCAC
1 TTCAATATCACTCAAACCAC
101034238 CAATAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (20 bp):
TTCAATATCACTCAAACCAC
Found at i:101034657 original size:11 final size:12
Alignment explanation
Indices: 101034639--101034668 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
101034629 AGTAAGTACA
101034639 TCTTTTTTCTTT
1 TCTTTTTTCTTT
101034651 T-TTTTTTCTTT
1 TCTTTTTTCTTT
101034662 TCTTTTT
1 TCTTTTT
101034669 GTAGGATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:101036638 original size:22 final size:20
Alignment explanation
Indices: 101036600--101036639 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
101036590 TTTGTCTCAG
*
101036600 TTGCATATATTTGCATTTTC
1 TTGCATATATTGGCATTTTC
101036620 TTGCATATATATGGCCATTT
1 TTGCATATAT-TGG-CATTT
101036640 ACAAGTCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 2 0.12
22 5 0.29
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (20 bp):
TTGCATATATTGGCATTTTC
Found at i:101039094 original size:7 final size:7
Alignment explanation
Indices: 101039084--101039165 Score: 56
Period size: 7 Copynumber: 11.3 Consensus size: 7
101039074 AGTGGGTAAA
101039084 GGTTAAG
1 GGTTAAG
*
101039091 GGTTATG
1 GGTTAAG
* *
101039098 GATTATG
1 GGTTAAG
101039105 GGTTTAAG
1 GG-TTAAG
*
101039113 GATTAAG
1 GGTTAAG
*
101039120 GGTTATG
1 GGTTAAG
*
101039127 GGTTTAAT
1 GG-TTAAG
101039135 GGTTAAAG
1 GGTT-AAG
* *
101039143 GGATAGG
1 GGTTAAG
*
101039150 GGTTAGG
1 GGTTAAG
101039157 GGTTAAG
1 GGTTAAG
101039164 GG
1 GG
101039166 GTTTAATTAA
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
7 43 0.74
8 15 0.26
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (7 bp):
GGTTAAG
Found at i:101039094 original size:36 final size:35
Alignment explanation
Indices: 101039022--101039094 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 35
101039012 AAAATATATA
** *
101039022 TTAAAGTTTAGGGATTATGGGTTTAGGGGTTGGGGT
1 TTAAAGTTTAGGGATTATGGG-TTAAAGGTTAGGGT
101039058 TTAAAGTTTAGGGATTAGTGGG-TAAAGGTTAAGGGT
1 TTAAAGTTTAGGGATTA-TGGGTTAAAGGTT-AGGGT
101039094 T
1 T
101039095 ATGGATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 6 0.19
36 22 0.69
37 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (35 bp):
TTAAAGTTTAGGGATTATGGGTTAAAGGTTAGGGT
Found at i:101039111 original size:22 final size:22
Alignment explanation
Indices: 101039086--101039140 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
101039076 TGGGTAAAGG
*
101039086 TTAAGGGTTATGGATTATGGGT
1 TTAAGGGTTAAGGATTATGGGT
* *
101039108 TTAAGGATTAAGGGTTATGGGT
1 TTAAGGGTTAAGGATTATGGGT
*
101039130 TTAATGGTTAA
1 TTAAGGGTTAA
101039141 AGGGATAGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (22 bp):
TTAAGGGTTAAGGATTATGGGT
Found at i:101039124 original size:29 final size:28
Alignment explanation
Indices: 101039069--101039127 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
101039059 TAAAGTTTAG
101039069 GGATTAGTGGGTAAAGGTTAAGGGTTAT
1 GGATTAGTGGGTAAAGGTTAAGGGTTAT
*
101039097 GGATTA-TGGGTTTAAGGATTAAGGGTTAT
1 GGATTAGTGGG-TAAAGG-TTAAGGGTTAT
101039126 GG
1 GG
101039128 GTTTAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 4 0.14
28 11 0.39
29 13 0.46
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.34
Consensus pattern (28 bp):
GGATTAGTGGGTAAAGGTTAAGGGTTAT
Found at i:101039252 original size:21 final size:22
Alignment explanation
Indices: 101039199--101039254 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
101039189 ATGGGAAAGG
101039199 GGTTTATGGTTTATGAGTTAAT
1 GGTTTATGGTTTATGAGTTAAT
* * *
101039221 GTTTTAAGGTTTA-GAGATT-TT
1 GGTTTATGGTTTATGAG-TTAAT
101039242 GGTTTATGGTTTA
1 GGTTTATGGTTTA
101039255 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (22 bp):
GGTTTATGGTTTATGAGTTAAT
Found at i:101039268 original size:21 final size:23
Alignment explanation
Indices: 101039244--101039302 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
101039234 GAGATTTTGG
*
101039244 TTTATGGTTTAAGGGTT-G-GGA
1 TTTAAGGTTTAAGGGTTAGTGGA
*
101039265 TTTAAGGTTTAGGGGTTAGTGGA
1 TTTAAGGTTTAAGGGTTAGTGGA
*
101039288 -TTAGGGTTT-AGGGTT
1 TTTAAGGTTTAAGGGTT
101039303 TCATGGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 20 0.62
22 9 0.28
23 3 0.09
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (23 bp):
TTTAAGGTTTAAGGGTTAGTGGA
Found at i:101039310 original size:15 final size:15
Alignment explanation
Indices: 101039292--101039333 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
101039282 AGTGGATTAG
101039292 GGTTTAGGGTTTCAT
1 GGTTTAGGGTTTCAT
*
101039307 GGTTTA-GGTATTTAT
1 GGTTTAGGGT-TTCAT
*
101039322 GGTTTGGGGTTT
1 GGTTTAGGGTTT
101039334 AAAGGGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.13
15 17 0.74
16 3 0.13
ACGTcount: A:0.12, C:0.02, G:0.36, T:0.50
Consensus pattern (15 bp):
GGTTTAGGGTTTCAT
Found at i:101039313 original size:22 final size:22
Alignment explanation
Indices: 101039241--101039314 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
101039231 TTAGAGATTT
* *
101039241 TGGTTTATGGTTTAAGGGTT-G
1 TGGTTTAGGGTTTAGGGGTTAG
*
101039262 -GGATTTAAGGTTTAGGGGTTAG
1 TGG-TTTAGGGTTTAGGGGTTAG
* *
101039284 TGGATTAGGGTTTAGGGTTTCA-
1 TGGTTTAGGGTTTAGGGGTT-AG
101039306 TGGTTTAGG
1 TGGTTTAGG
101039315 TATTTATGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
20 2 0.05
21 15 0.35
22 23 0.53
23 3 0.07
ACGTcount: A:0.18, C:0.01, G:0.39, T:0.42
Consensus pattern (22 bp):
TGGTTTAGGGTTTAGGGGTTAG
Found at i:101039367 original size:15 final size:14
Alignment explanation
Indices: 101039347--101039377 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
101039337 GGGTATGAGA
101039347 TAGGGGTTATGGGGT
1 TAGGGGTTA-GGGGT
101039362 TAGGGGTTAGGGGT
1 TAGGGGTTAGGGGT
101039376 TA
1 TA
101039378 TGAGTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (14 bp):
TAGGGGTTAGGGGT
Found at i:101039369 original size:7 final size:7
Alignment explanation
Indices: 101039347--101039377 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
101039337 GGGTATGAGA
101039347 TAGGGGT
1 TAGGGGT
101039354 TATGGGGT
1 TA-GGGGT
101039362 TAGGGGT
1 TAGGGGT
101039369 TAGGGGT
1 TAGGGGT
101039376 TA
1 TA
101039378 TGAGTTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TAGGGGT
Found at i:101039643 original size:26 final size:27
Alignment explanation
Indices: 101039570--101039644 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 27
101039560 AATAATTTAA
* *
101039570 AAATTTAAAGATTTCAAA-TTTAGAAT
1 AAATTTCAATATTTCAAATTTTAGAAT
101039596 AAATTTCAATATTTCAAATTTTA-AAT
1 AAATTTCAATATTTCAAATTTTAGAAT
*
101039622 AATTTTCAATATTTCAAATTTTA
1 AAATTTCAATATTTCAAATTTTA
101039645 TCTAATTCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 41 0.91
27 4 0.09
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (27 bp):
AAATTTCAATATTTCAAATTTTAGAAT
Found at i:101039955 original size:40 final size:41
Alignment explanation
Indices: 101039839--101039980 Score: 207
Period size: 40 Copynumber: 3.5 Consensus size: 41
101039829 GTCTCCAAGG
*
101039839 GAATTAGCGGCGTTTTTAAAAAAAGCACCGCTAAAAATAGA
1 GAATTAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAAATAGA
101039880 GAATTAGCGGCGTTTTTAAAAAAAAGCGCCGCTAAAAATA-A
1 GAATTAGCGGCGTTTTT-AAAAAAAGCGCCGCTAAAAATAGA
* * *
101039921 GGAATTAGTGGTGTTTTT-AAAAAAGCGCCACTAAAAATAGA
1 -GAATTAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAAATAGA
*
101039962 GAATTAGTGGCGTTTTTAA
1 GAATTAGCGGCGTTTTTAA
101039981 TTAAACGCCA
Statistics
Matches: 92, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
40 36 0.39
41 20 0.22
42 36 0.39
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (41 bp):
GAATTAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAAATAGA
Found at i:101042696 original size:241 final size:241
Alignment explanation
Indices: 101042267--101043152 Score: 1646
Period size: 241 Copynumber: 3.7 Consensus size: 241
101042257 AGTTATAAGC
* *
101042267 AATTAAAACAATAGCTGACCTTCTCTCTAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
* * *
101042332 AGGCTGGAAACCTGACGGGTTACTTTATATCGAGCTGTAAGATATAATGGGTCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
101042397 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
101042462 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
101042508 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
101042573 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
101042638 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
101042703 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
*
101042749 AATTACAACAATAGCTGACATTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
* *
101042814 AGGCTGGAAACCTGACGAGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTGGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
* * *
101042879 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTAAAAAAAGTTCTATCTAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
101042944 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
* *
101042990 AATTACAACAATAGCTTACCTTCTCTCCAACCTTGTTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
101043055 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
*
101043120 AACAACGCCACGTACGATGAATCTTAAAAAATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATT
101043153 ACTATATTCA
Statistics
Matches: 628, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 628 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (241 bp):
AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
Found at i:101043341 original size:39 final size:39
Alignment explanation
Indices: 101043289--101043366 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
101043279 TAAATTACAT
*
101043289 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
101043328 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
101043367 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:101043366 original size:57 final size:57
Alignment explanation
Indices: 101043285--101043397 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
101043275 TAAATAAATT
* * ** *
101043285 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACACAACTC
* *
101043342 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACACAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACACAACT
101043398 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACACAACTC
Found at i:101043399 original size:9 final size:9
Alignment explanation
Indices: 101043272--101043384 Score: 118
Period size: 9 Copynumber: 12.2 Consensus size: 9
101043262 ATTGATCATT
*
101043272 ACTTAAATA
1 ACTTACATA
*
101043281 AATTACATA
1 ACTTACATA
101043290 ACTTACATA
1 ACTTACATA
* *
101043299 ACTCATATA
1 ACTTACATA
101043308 ACTTACATA
1 ACTTACATA
*
101043317 ATTTACATAACA
1 ACTTACAT---A
101043329 ACTTACATA
1 ACTTACATA
*
101043338 ACTCACATA
1 ACTTACATA
101043347 ACTTACATA
1 ACTTACATA
*
101043356 ATTTACATA
1 ACTTACATA
*
101043365 ACTCACATA
1 ACTTACATA
*
101043374 ACGTACATA
1 ACTTACATA
101043383 AC
1 AC
101043385 AACTTACACA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
9 77 0.91
12 8 0.09
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:101049471 original size:43 final size:42
Alignment explanation
Indices: 101049424--101049540 Score: 155
Period size: 43 Copynumber: 2.7 Consensus size: 42
101049414 AAAAAGCGCC
101049424 GCTAAAAGCCGTGATATTTAGCGGCGCTTTACCCACAAACGCA
1 GCTAAAAGCCGTGAT-TTTAGCGGCGCTTTACCCACAAACGCA
* * * *
101049467 GCTAAAAGCCGTGCCTTTTAGCGGCACTTTTCCCACAAACGCC
1 GCTAAAAGCCGTG-ATTTTAGCGGCGCTTTACCCACAAACGCA
101049510 GCT-AAAGTCCGTGACTTTTAGCGGCGCTTTA
1 GCTAAAAG-CCGTGA-TTTTAGCGGCGCTTTA
101049541 GCGGCGTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 4 0.06
43 59 0.92
44 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (42 bp):
GCTAAAAGCCGTGATTTTAGCGGCGCTTTACCCACAAACGCA
Found at i:101053340 original size:47 final size:47
Alignment explanation
Indices: 101053270--101053483 Score: 199
Period size: 47 Copynumber: 4.6 Consensus size: 47
101053260 AAGTGATTTC
* *
101053270 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATATGAATA
* * * * *
101053316 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTG-ATT
1 C-GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATATGAATA
* * * * * *
101053363 CGTGTAAGCCCATAGCTGGGTTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATATGAATA
* *
101053412 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATATGAATA
* *
101053454 TGTATAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATAGCTGGGATATGGCATC
101053484 ATTATGTGAA
Statistics
Matches: 144, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
42 38 0.26
46 26 0.18
47 41 0.28
48 10 0.07
49 29 0.20
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (47 bp):
CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATATGAATA
Found at i:101053462 original size:42 final size:42
Alignment explanation
Indices: 101053416--101053526 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
101053406 TGATTACGTG
*
101053416 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTA
1 TAAGACCATAGCTGGGCTATGGCATC-ATTATATGAAGATGTA
* *
101053458 TAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCATTATATGAAGATGTA
* **
101053500 TAAGACCATAGTTGAACTATGGCATCA
1 TAAGACCATAGCTGGGCTATGGCATCA
101053527 AGAAAACGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
41 1 0.02
42 61 0.98
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCATTATATGAAGATGTA
Found at i:101057218 original size:35 final size:35
Alignment explanation
Indices: 101057159--101057241 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
101057149 AGTATATATC
* * **
101057159 AATAAAATTATTT-TGATTTGTATTTTTTTATTTAT
1 AATATAATTATTTATGATTTATATTTTACTA-TTAT
101057194 AATATAATTATTTAT-ATTTATATTTTACTATTAT
1 AATATAATTATTTATGATTTATATTTTACTATTAT
*
101057228 -ATATATTTATTTAT
1 AATATAATTATTTAT
101057242 TATTCAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 13 0.31
34 4 0.10
35 24 0.57
36 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (35 bp):
AATATAATTATTTATGATTTATATTTTACTATTAT
Found at i:101063415 original size:22 final size:22
Alignment explanation
Indices: 101063390--101063432 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
101063380 TTTTATTGTT
101063390 TTGTTAATATTTCGTTATTATA
1 TTGTTAATATTTCGTTATTATA
* * *
101063412 TTGTTACTATTTTGTTGTTAT
1 TTGTTAATATTTCGTTATTAT
101063433 TGGTTTGGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.12, T:0.63
Consensus pattern (22 bp):
TTGTTAATATTTCGTTATTATA
Found at i:101064674 original size:29 final size:29
Alignment explanation
Indices: 101064641--101064699 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
101064631 GTTCAGTTAA
101064641 TAACTAAGCTTTCGAGGAGAAAGTCTTAG
1 TAACTAAGCTTTCGAGGAGAAAGTCTTAG
101064670 TAACTAAGCTTTCGAGGAGAAAGTCTTAG
1 TAACTAAGCTTTCGAGGAGAAAGTCTTAG
101064699 T
1 T
101064700 GGGAAGAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (29 bp):
TAACTAAGCTTTCGAGGAGAAAGTCTTAG
Found at i:101077602 original size:3 final size:3
Alignment explanation
Indices: 101077594--101077638 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
101077584 AAGGGAAAAT
* *
101077594 ATA ATA ATA ATA ATA ATA GTA ATA ATA CGATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA A
101077639 AGAGGCGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 33 0.92
5 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:101081809 original size:2 final size:2
Alignment explanation
Indices: 101081802--101081839 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
101081792 GCCAAAGTGA
*
101081802 AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
101081840 TTAGTTAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:101085584 original size:18 final size:18
Alignment explanation
Indices: 101085550--101085584 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101085540 ATAATATTAA
* *
101085550 TTAATAAAATATTATTTC
1 TTAATAAAAAATCATTTC
101085568 TTAATAAAAAATCATTT
1 TTAATAAAAAATCATTT
101085585 AAAAGCCATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATAAAAAATCATTTC
Found at i:101089302 original size:3 final size:3
Alignment explanation
Indices: 101089294--101089319 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
101089284 CAATAATGCC
101089294 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
101089320 AGACCCCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:101090415 original size:28 final size:28
Alignment explanation
Indices: 101090383--101090439 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
101090373 TTACCATTAC
101090383 ATCAACAATAATTCTTATATGAATTTTA
1 ATCAACAATAATTCTTATATGAATTTTA
101090411 ATCAACAATAATTCTTATATGAATTTTA
1 ATCAACAATAATTCTTATATGAATTTTA
101090439 A
1 A
101090440 AAAATTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (28 bp):
ATCAACAATAATTCTTATATGAATTTTA
Found at i:101093432 original size:19 final size:18
Alignment explanation
Indices: 101093392--101093449 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
101093382 ATTTAAAAAG
* *
101093392 TTATAAAAATCAGAAATAA
1 TTATAAAAATTAAAAAT-A
*
101093411 TTATAAAAAATTATAAATA
1 TTAT-AAAAATTAAAAATA
*
101093430 TTATCAAATATTAAAAATA
1 TTAT-AAAAATTAAAAATA
101093449 T
1 T
101093450 GAAAACTGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 22 0.67
20 11 0.33
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (18 bp):
TTATAAAAATTAAAAATA
Found at i:101095627 original size:9 final size:9
Alignment explanation
Indices: 101095613--101095689 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
101095603 ATAAGTATAA
101095613 AATTAACCG
1 AATTAACCG
*
101095622 AATTAATCG
1 AATTAACCG
101095631 AATTAACCG
1 AATTAACCG
*
101095640 AATTACCCG
1 AATTAACCG
* *
101095649 AATTACCCA
1 AATTAACCG
*
101095658 AATTAATCG
1 AATTAACCG
*
101095667 AATTAACCA
1 AATTAACCG
101095676 AATTAACCG
1 AATTAACCG
101095685 AATTA
1 AATTA
101095690 TTTGTATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:101095662 original size:36 final size:36
Alignment explanation
Indices: 101095613--101095689 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
101095603 ATAAGTATAA
* * *
101095613 AATTAACCGAATTAATCGAATTAACCGAATTACCCG
1 AATTAACCAAATTAATCGAATTAACCAAATTAACCG
*
101095649 AATTACCCAAATTAATCGAATTAACCAAATTAACCG
1 AATTAACCAAATTAATCGAATTAACCAAATTAACCG
101095685 AATTA
1 AATTA
101095690 TTTGTATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (36 bp):
AATTAACCAAATTAATCGAATTAACCAAATTAACCG
Found at i:101095720 original size:6 final size:6
Alignment explanation
Indices: 101095709--101095755 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
101095699 AATTATATGT
* *
101095709 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
101095756 ATTAAGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 27 0.77
7 7 0.20
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:101095796 original size:13 final size:13
Alignment explanation
Indices: 101095780--101095804 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101095770 AATTTTTATG
101095780 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
101095793 ATTGGGTTGGGT
1 ATTGGGTTGGGT
101095805 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:101095804 original size:18 final size:18
Alignment explanation
Indices: 101095781--101095818 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
101095771 ATTTTTATGA
101095781 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
101095799 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
101095817 TT
1 TT
101095819 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:101096151 original size:21 final size:21
Alignment explanation
Indices: 101096125--101096171 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
101096115 ATTTAGATTC
* *
101096125 TAAAATTATTAAAATTATAAT
1 TAAAATAATAAAAATTATAAT
101096146 TAAAATAATAAAAATTATAAT
1 TAAAATAATAAAAATTATAAT
*
101096167 AAAAA
1 TAAAA
101096172 AATTAAAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TAAAATAATAAAAATTATAAT
Found at i:101096161 original size:15 final size:14
Alignment explanation
Indices: 101096143--101096178 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
101096133 TTAAAATTAT
101096143 AATTAAAATAATAAA
1 AATTAAAATAA-AAA
*
101096158 AATTATAATAAAAA
1 AATTAAAATAAAAA
101096172 AATTAAA
1 AATTAAA
101096179 GCATACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AATTAAAATAAAAA
Found at i:101096178 original size:21 final size:22
Alignment explanation
Indices: 101096126--101096178 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
101096116 TTTAGATTCT
101096126 AAAATTATTAAAATTATAATTAAA
1 AAAATTA--AAAATTATAATTAAA
*
101096150 ATAA-TAAAAATTATAA-TAAA
1 AAAATTAAAAATTATAATTAAA
101096170 AAAATTAAA
1 AAAATTAAA
101096179 GCATACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.27
21 14 0.54
23 2 0.08
24 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATTAAAAATTATAATTAAA
Found at i:101097255 original size:17 final size:15
Alignment explanation
Indices: 101097217--101097256 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
101097207 TTAAAAATAA
101097217 TAAAAAATATAAATT
1 TAAAAAATATAAATT
*
101097232 TTAAAAATATAATATT
1 TAAAAAATATAA-ATT
101097248 TAATAAAAT
1 TAA-AAAAT
101097257 TATATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 11 0.52
16 5 0.24
17 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAAAATATAAATT
Found at i:101098356 original size:45 final size:45
Alignment explanation
Indices: 101098275--101098450 Score: 257
Period size: 45 Copynumber: 4.0 Consensus size: 45
101098265 CAGAATTCAT
* * * *
101098275 TCACCGGCATT-TCGCCTGCTAGGTTC-GAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
101098318 TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
101098363 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
101098408 TAACCGGCATTATAGCCTGATAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
101098451 CTGTACAATA
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 10 0.08
44 13 0.11
45 96 0.81
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:101103293 original size:6 final size:6
Alignment explanation
Indices: 101103282--101103319 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
101103272 TAATTGAGTA
*
101103282 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAA TGAAAT TG
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TG
101103320 GTCCTACATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (6 bp):
TGAAAT
Found at i:101103487 original size:21 final size:21
Alignment explanation
Indices: 101103449--101103488 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
101103439 AAATTAAAAT
* * *
101103449 AAATATTTTTTAATAAATTGA
1 AAATATATTTAAAAAAATTGA
101103470 AAATATATTTAAAAAAATT
1 AAATATATTTAAAAAAATT
101103489 TATATTCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AAATATATTTAAAAAAATTGA
Found at i:101104229 original size:30 final size:30
Alignment explanation
Indices: 101104195--101104261 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
101104185 GTAAAAATAT
* *
101104195 AATTTTATTATTTTAAAAAGATTAAATTAA
1 AATTTTATCATTTTAAAAAGATTAAAGTAA
* ** *
101104225 AATTTTATCATTTTTAAGGGATTAAAGTAT
1 AATTTTATCATTTTAAAAAGATTAAAGTAA
101104255 AATTTTA
1 AATTTTA
101104262 CGTTTATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.48
Consensus pattern (30 bp):
AATTTTATCATTTTAAAAAGATTAAAGTAA
Found at i:101106671 original size:15 final size:15
Alignment explanation
Indices: 101106651--101106680 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
101106641 TGACAGGCCG
101106651 ATCCAATAGATTAAT
1 ATCCAATAGATTAAT
101106666 ATCCAATAGATTAAT
1 ATCCAATAGATTAAT
101106681 CTTTGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
ATCCAATAGATTAAT
Done.